Example CellML Electrophysiological Models
This part of the CellML website contains some examples that demonstrate how CellML can be used to mark up electrophysiological models. The basic theoretical examples we have used are designed to help clarify the specifications and demonstrate what the CellML developers regard as “best practice” for model design. The metadata associated with the models provide structured contextual information and facilitate searches of collections of models and model components. Currently all metadata are optional; however, the CellML team strongly recommends that the modeller provides as much metadata as possible. All models have the same basic constituents and structure. This facilitates the creation of complex models from simpler ones by combining models and/or adding detail to existing models.
Each example includes a description explaining the CellML, several versions of the CellML description of the model available for download, and a PDF of the equations used in the CellML description. The PDF of each model's equations was generated using the MathML Renderer, a tool which extracts the MathML from the CellML and transforms it to LaTeX.
The currently available example electrophysiological models are:
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Demonstration
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basic electrophysiological model: introduces the
<model>,<component>,<variable>, and<connection>elements. Demonstrates the declaration of units and the use of MathML to encode mathematics. -
basic electrophysiological model with encapsulation: demonstrates the use of the
<group>element to encapsulate components and to define geometric containment relationships.
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A Full Published Model
